Supporting data of the black tiger shrimp (Penaeus monodon) genome assembly

The black tiger shrimp, Penaeus monodon (Fabricius, 1798) is a valuable commercial marine species in the inshore region of India Ocean and Southeast Asia. Even with extensive application of sequencing, genome resources are still lack in shrimp because of high heterozygosity and extremely high proportion of repeat sequences. In this study, the genome assembly of the black tiger shrimp was constructed in a hybrid strategy with Pacbio long reads and Illumna short reads. The contig N50 and scaffold N50 of the preliminary assembly were 116.8 kb and 268.5 kb, respectively. The scaffolds were anchored into chromosome-level assembly with Hi-C. The chromosome-level assembly was 2.1 Gb, accounting for 90.2% of the estimated genome size, and consisted of 53.7% of repeat sequences. A total of 29,387 protein-coding genes were predicted, 75.6% of which were successfully annotated with putative function. Furthermore, divergence between the black tiger shrimp and Pacific white shrimp was estimated to be 2.79 million years ago. And the population size of black tiger shrimp had been increasing since 50,000 years ago. This assembly is the second chromosome-level assembly in shrimp, and will be a valuable genomic resource for conservation and breeding studies of the black tiger shrimp in the future research.